- recipe bioconductor-amplican
Automated analysis of CRISPR experiments
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/amplican.html
- License:
GPL-3
- Recipe:
`amplican` performs alignment of the amplicon reads, normalizes gathered data, calculates multiple statistics (e.g. cut rates, frameshifts) and presents results in form of aggregated reports. Data and statistics can be broken down by experiments, barcodes, user defined groups, guides and amplicons allowing for quick identification of potential problems.
- package bioconductor-amplican¶
-
- Versions:
1.20.0-0
,1.16.0-2
,1.16.0-1
,1.16.0-0
,1.14.0-0
,1.12.0-1
,1.12.0-0
,1.10.0-0
,1.8.0-0
,1.20.0-0
,1.16.0-2
,1.16.0-1
,1.16.0-0
,1.14.0-0
,1.12.0-1
,1.12.0-0
,1.10.0-0
,1.8.0-0
,1.6.2-0
,1.4.0-0
- Depends:
bioconductor-biocgenerics
>=0.44.0,<0.45.0
bioconductor-biocparallel
>=1.32.0,<1.33.0
bioconductor-biostrings
>=2.66.0,<2.67.0
bioconductor-genomeinfodb
>=1.34.0,<1.35.0
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-iranges
>=2.32.0,<2.33.0
bioconductor-s4vectors
>=0.36.0,<0.37.0
bioconductor-shortread
>=1.56.0,<1.57.0
libblas
>=3.9.0,<4.0a0
libgcc-ng
>=12
liblapack
>=3.9.0,<4.0a0
libstdcxx-ng
>=12
r-base
>=4.2,<4.3.0a0
r-clustercrit
>=1.2.7
r-data.table
>=1.10.4-3
r-dplyr
>=0.7.2
r-ggplot2
>=2.2.0
r-ggthemes
>=3.4.0
r-gridextra
>=2.2.1
r-gtable
>=0.2.0
r-knitr
>=1.16
r-matrix
>=1.2-10
r-matrixstats
>=0.52.2
r-rmarkdown
>=1.6
r-stringr
>=1.2.0
r-waffle
>=0.7.0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-amplican
and update with:
conda update bioconductor-amplican
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-amplican:<tag>
(see bioconductor-amplican/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-amplican/README.html)